论文标题
通过拓扑数据分析跟踪集体细胞运动
Tracking collective cell motion by topological data analysis
论文作者
论文摘要
通过将活动顶点模型修改和校准为实验,我们在数值上模拟了一个汇合的细胞单层,该单层散布在空白空间上,并在拮抗迁移测定中的两个不同细胞的单层碰撞。细胞受到惯性力和试图将其速度与相邻速度保持一致的活性力。与实验一致,扩散测试在移动界面,速度场中的漩涡中表现出手指形成,并且极顺序参数和相关性和漩涡长度随时间而增加。如最近的实验中,组织内部的细胞的面积比界面处的细胞更小。在拮抗迁移测定中,分别在几何临界值之上和下方的形状参数的野生型固体类细胞侵袭了野生型固体类细胞的群体。细胞混合或分离取决于不同细胞之间的连接张力。我们通过假设一小部分细胞有利于混合,其他分离,并且这些细胞在空间中随机分布,从而重现了实验观察到的拮抗迁移测定。为了表征和比较细胞类型或以自动方式扩散细胞单层的接口的结构,我们将拓扑数据分析应用于实验数据和数值模拟。我们使用数值仿真数据的时间序列来自动通过瓶颈或Wasserstein持续的同源性进行分组,跟踪和分类细胞聚集体的界面。这些拓扑数据分析技术是可扩展的,可用于涉及大量数据的研究。除了适用于伤口愈合和转移性癌症外,这些研究还与组织工程,材料的生物学作用,组织和器官再生有关。
By modifying and calibrating an active vertex model to experiments, we have simulated numerically a confluent cellular monolayer spreading on an empty space and the collision of two monolayers of different cells in an antagonistic migration assay. Cells are subject to inertial forces and to active forces that try to align their velocities with those of neighboring ones. In agreement with experiments, spreading tests exhibit finger formation in the moving interfaces, swirls in the velocity field, and the polar order parameter and correlation and swirl lengths increase with time. Cells inside the tissue have smaller area than those at the interface, as observed in recent experiments. In antagonistic migration assays, a population of fluidlike Ras cells invades a population of wild type solidlike cells having shape parameters above and below the geometric critical value, respectively. Cell mixing or segregation depends on the junction tensions between different cells. We reproduce experimentally observed antagonistic migration assays by assuming that a fraction of cells favor mixing, the others segregation, and that these cells are randomly distributed in space. To characterize and compare the structure of interfaces between cell types or of interfaces of spreading cellular monolayers in an automatic manner, we apply topological data analysis to experimental data and to numerical simulations. We use time series of numerical simulation data to automatically group, track and classify advancing interfaces of cellular aggregates by means of bottleneck or Wasserstein distances of persistent homologies. These topological data analysis techniques are scalable and could be used in studies involving large amounts of data. Besides applications to wound healing and metastatic cancer, these studies are relevant for tissue engineering, biological effects of materials, tissue and organ regeneration.